text: Siddiqui was a founder-member of the Indian and Pakistan Academies of Sciences, and later a founder member of the international body the Third World Academy of Sciences. The following are the honours he received, in reverse chronological order:
  * Gold medal of the Soviet Academy of Sciences
  * Third World Academy of Sciences – TWAS Prize, 1985
  * Hilal-e-Imtiaz, (Crescent of Excellence) 1980 by the Government of Pakistan
  * President of Pakistan's Pride of Performance Medal, 1966
  * Sitara-e-Imtiaz, 1962 (Star of Excellence) by the Government of Pakistan
  * Fellow of the Royal Society, 1961
  * President, Pan-Indian Ocean Science Association, 1960
  * Tamgha-e-Pakistan, 1958 (Medal of Pakistan)
  * D. Med. Honoris causa from the Frankfurt University, 1958
  * Foundation Fellow, Pakistan Academy of Sciences, 1953
  * Order of the British Empire in 1946